Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	N	T	S	I	Q	T	Q	S	Y	R	A	V	D	K	D	A	G	Q	S	R	S	Y	I	I	P	F	A	L	L	C	S	L	F	F	L	W	A	V	A	N	N	L	N	D	I	L	L	P	Q	F	Q	Q	A	F	T	L	T	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	Q	A	G	L	I	Q	S	A	F	Y	F	G	Y	F	I	I	P	I	P	A	G	I	L	M	K	K	L	S	Y	K	A	G	I	I	T	G	L	F	L	Y	A	L	G	A	A	L	F	W	P	A	A	E	I	M	N	Y	T	L	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	V	G	L	F	I	I	A	A	G	L	G	C	L	E	T	A	A	N	P	F	V	T	V	L	G	P	E	S	S	G	H	F	R	L	N	L	A	Q	T	F	N	S	F	G	A	I	I	A	V	V	F	G	Q	S	L	I	L	S	N
Secondary structure
SS confidence
Disorder																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	P	H	Q	S	Q	D	V	L	D	K	M	S	P	E	Q	L	S	A	Y	K	H	S	L	V	L	S	V	Q	T	P	Y	M	I	I	V	A	I	V	L	L	V	A	L	L	I	M	L	T	K	F	P	A	L	Q	S	D	N	H	S
Secondary structure
SS confidence
Disorder				?	?	?					?	?	?	?	?	?						?		?	?																												?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		D	A	K	Q	G	S	F	S	A	S	L	S	R	L	A	R	I	R	H	W	R	W	A	V	L	A	Q	F	C	Y	V	G	A	Q	T	A	C	W	S	Y	L	I	R	Y	A	V	E	E	I	P	G	M	T	A	G	F	A	A	N	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																																								?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	T	G	T	M	V	C	F	F	I	G	R	F	T	G	T	W	L	I	S	R	F	A	P	H	K	V	L	A	A	Y	A	L	I	A	M	A	L	C	L	I	S	A	F	A	G	G	H	V	G	L	I	A	L	T	L	C	S	A	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		M	S	I	Q	Y	P	T	I	F	S	L	G	I	K	N	L	G	Q	D	T	K	Y	G	S	S	F	I	V	M	T	I	I	G	G	G	I	V	T	P	V	M	G	F	V	S	D	A	A	G	N	I	P	T	A	E	L	I	P	A	L
Secondary structure
SS confidence
Disorder															?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.
Sequence		C	F	A	V	I	F	I	F	A	R	F	R	S	Q	T	A	T	N
Secondary structure
SS confidence
Disorder													?	?	?	?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 3o7p chain A Region: 22 - 435 Aligned: 410 Modelled: 410 Confidence: 100.0% Identity: 96% PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) Phyre2 PDB 1pw4 chain A Region: 3 - 435 Aligned: 411 Modelled: 412 Confidence: 100.0% Identity: 8% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2gfp chain A Region: 28 - 425 Aligned: 368 Modelled: 371 Confidence: 100.0% Identity: 10% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 1pv7 chain A Region: 20 - 436 Aligned: 390 Modelled: 393 Confidence: 100.0% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2xut chain C Region: 29 - 429 Aligned: 399 Modelled: 401 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 3b9y chain A Region: 11 - 247 Aligned: 228 Modelled: 235 Confidence: 70.4% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 2g9p chain A Region: 80 - 93 Aligned: 14 Modelled: 14 Confidence: 15.4% Identity: 43% PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom Phyre2 PDB 2bbj chain B Region: 368 - 435 Aligned: 68 Modelled: 68 Confidence: 10.9% Identity: 6% PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter Phyre2 PDB 3pro chain C domain 1 Region: 48 - 89 Aligned: 42 Modelled: 42 Confidence: 8.9% Identity: 7% Fold: Alpha-lytic protease prodomain-like Superfamily: Alpha-lytic protease prodomain Family: Alpha-lytic protease prodomain Phyre2 PDB 3hd6 chain A Region: 9 - 235 Aligned: 221 Modelled: 227 Confidence: 8.6% Identity: 12% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2iub chain A domain 2 Region: 395 - 435 Aligned: 41 Modelled: 41 Confidence: 8.2% Identity: 10% Fold: Transmembrane helix hairpin Superfamily: Magnesium transport protein CorA, transmembrane region Family: Magnesium transport protein CorA, transmembrane region Phyre2 PDB 3arc chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 6.9% Identity: 21% PDB header:electron transport, photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 3a0b chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 6.9% Identity: 21% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3eml chain A Region: 4 - 88 Aligned: 85 Modelled: 85 Confidence: 6.5% Identity: 11% PDB header:membrane protein, receptor Chain: A: PDB Molecule:human adenosine a2a receptor/t4 lysozyme chimera; PDBTitle: the 2.6 a crystal structure of a human a2a adenosine2 receptor bound to zm241385. Phyre2 PDB 3hfx chain A Region: 394 - 438 Aligned: 45 Modelled: 45 Confidence: 6.4% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 3a0h chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 5.3% Identity: 21% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 2axt chain T domain 1 Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 5.3% Identity: 21% Fold: Single transmembrane helix Superfamily: Photosystem II reaction center protein T, PsbT Family: PsbT-like Phyre2 PDB 3kzi chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 5.3% Identity: 21% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii Phyre2 PDB 3a0h chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 5.3% Identity: 21% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 2axt chain T Region: 412 - 435 Aligned: 24 Modelled: 24 Confidence: 5.3% Identity: 21% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus Phyre2 1 c3o7pA_ 2 d1pw4a_ 3 c2gfpA_ 4 d1pv7a_ 5 c2xutC_ 6 c3b9yA_ 7 c2g9pA_ 8 c2bbjB_ 9 d3proc1 10 c3hd6A_ 11 d2iuba2 12 c3arct_ 13 c3a0bT_ 14 c3emlA_ 15 c3hfxA_ 16 c3a0hT_ 17 d2axtt1 18 c3kziT_ 19 c3a0ht_ 20 c2axtT_ 21 22 23 24 25 26 27 28

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3o7pA_ 100.0 96 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 2 d1pw4a_ 100.0 8 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 c2gfpA_ 100.0 10 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 4 d1pv7a_ 100.0 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 5 c2xutC_ 100.0 13 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 6 c3b9yA_ 70.4 11 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 7 c2g9pA_ 15.4 43 PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom 8 c2bbjB_ 10.9 6 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 9 d3proc1 8.9 7 Fold:Alpha-lytic protease prodomain-like Superfamily:Alpha-lytic protease prodomain Family:Alpha-lytic protease prodomain 10 c3hd6A_ 8.6 12 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 11 d2iuba2 8.2 10 Fold:Transmembrane helix hairpin Superfamily:Magnesium transport protein CorA, transmembrane region Family:Magnesium transport protein CorA, transmembrane region 12 c3arct_ 6.9 21 PDB header:electron transport, photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 13 c3a0bT_ 6.9 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of br-substituted photosystem ii complex 14 c3emlA_ 6.5 11 PDB header:membrane protein, receptor Chain: A: PDB Molecule:human adenosine a2a receptor/t4 lysozyme chimera; PDBTitle: the 2.6 a crystal structure of a human a2a adenosine2 receptor bound to zm241385. 15 c3hfxA_ 6.4 13 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 16 c3a0hT_ 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex 17 d2axtt1 5.3 21 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein T, PsbT Family:PsbT-like 18 c3kziT_ 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii 19 c3a0ht_ 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex 20 c2axtT_ 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 21 c2axtt_ not modelled 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 22 c3arcT_ not modelled 5.3 21 PDB header:electron transport, photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 23 c3bz1T_ not modelled 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer 24 c3prrT_ not modelled 5.3 21 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer 25 c3prqT_ not modelled 5.3 21 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer 26 c3bz2T_ not modelled 5.3 21 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer 27 c3a0bt_ not modelled 5.1 22 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of br-substituted photosystem ii complex 28 c1s5lT_ not modelled 5.1 22 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii psbt protein; PDBTitle: architecture of the photosynthetic oxygen evolving center

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0